gmoviz
Seamless visualization of complex genomic variations in GMOs and edited cell lines
Bioconductor version: 3.23 · Package version: 1.24.0
Genetically modified organisms (GMOs) and cell lines are widely used models in all kinds of biological research. As part of characterising these models, DNA sequencing technology and bioinformatics analyses are used systematically to study their genomes. Therefore, large volumes of data are generated and various algorithms are applied to analyse this data, which introduces a challenge on representing all findings in an informative and concise manner. `gmoviz` provides users with an easy way to visualise and facilitate the explanation of complex genomic editing events on a larger, biologically-relevant scale.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("gmoviz") Details
| Maintainer | Kathleen Zeglinski <kathleen.zeglinski@csl.com.au> |
| Author | Kathleen Zeglinski [cre, aut], Arthur Hsu [aut], Monther Alhamdoosh [aut] (ORCID: <https://orcid.org/0000-0002-2411-1325>), Constantinos Koutsakis [aut] |
| License | GPL-3 |
| Downloads rank | 317 |
| Source branch | RELEASE_3_23 |
| biocViews | Coverage, GeneticVariability, GenomicVariation, Sequencing, Software, Visualization |
Documentation
- gmoviz: seamless visualisation of complex genomic variations in GMOs and edited cell lines – Advanced usage
- gmoviz: seamless visualisation of complex genomic variations in GMOs and edited cell lines – An overview
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Dependencies
Depends: circlize, GenomicRanges, graphics, R (>= 4.0)
Imports: grid, gridBase, Rsamtools, ComplexHeatmap, BiocGenerics, Biostrings, Seqinfo, methods, GenomicAlignments, GenomicFeatures, IRanges, rtracklayer, pracma, colorspace, S4Vectors
Suggests: testthat, knitr, rmarkdown, pasillaBamSubset, BiocStyle, BiocManager, GenomeInfoDb